Conformational Changes of RORγ During Response Element Recognition and Coregulator Engagement.
Animals
Binding Sites
DNA
/ metabolism
Female
Gene Expression Regulation
Humans
Mass Spectrometry
/ methods
Mice, Inbred BALB C
Nuclear Receptor Coactivator 3
/ genetics
Nuclear Receptor Subfamily 1, Group F, Member 3
/ chemistry
Protein Conformation
Response Elements
Scattering, Small Angle
X-Ray Diffraction
HDX
RORγ
RORγt
XL-MS
integrative structural modeling
transcriptional coregulators
Journal
Journal of molecular biology
ISSN: 1089-8638
Titre abrégé: J Mol Biol
Pays: Netherlands
ID NLM: 2985088R
Informations de publication
Date de publication:
05 11 2021
05 11 2021
Historique:
received:
26
05
2021
revised:
11
09
2021
accepted:
13
09
2021
pubmed:
22
9
2021
medline:
15
12
2021
entrez:
21
9
2021
Statut:
ppublish
Résumé
The retinoic acid receptor-related orphan receptor γ (RORγ) is a ligand-dependent transcription factor of the nuclear receptor super family that underpins metabolic activity, immune function, and cancer progression. Despite being a valuable drug target in health and disease, our understanding of the ligand-dependent activities of RORγ is far from complete. Like most nuclear receptors, RORγ must recruit coregulatory protein to enact the RORγ target gene program. To date, a majority of structural studies have been focused exclusively on the RORγ ligand-binding domain and the ligand-dependent recruitment of small peptide segments of coregulators. Herein, we examine the ligand-dependent assembly of full length RORγ:coregulator complexes on cognate DNA response elements using structural proteomics and small angle x-ray scattering. The results from our studies suggest that RORγ becomes elongated upon DNA recognition, preventing long range interdomain crosstalk. We also determined that the DNA binding domain adopts a sequence-specific conformation, and that coregulatory protein may be able to 'sense' the ligand- and DNA-bound status of RORγ. We propose a model where ligand-dependent coregulator recruitment may be influenced by the sequence of the DNA to which RORγ is bound. Overall, the efforts described herein will illuminate important aspects of full length RORγ and monomeric orphan nuclear receptor target gene regulation through DNA-dependent conformational changes.
Identifiants
pubmed: 34547329
pii: S0022-2836(21)00491-5
doi: 10.1016/j.jmb.2021.167258
pmc: PMC8556364
mid: NIHMS1742543
pii:
doi:
Substances chimiques
Nuclear Receptor Subfamily 1, Group F, Member 3
0
RORC protein, human
0
DNA
9007-49-2
NCOA3 protein, human
EC 2.3.1.48
Nuclear Receptor Coactivator 3
EC 2.3.1.48
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
167258Subventions
Organisme : NIGMS NIH HHS
ID : P30 GM124169
Pays : United States
Organisme : NIH HHS
ID : S10 OD018483
Pays : United States
Organisme : NCI NIH HHS
ID : R01 CA206493
Pays : United States
Organisme : NIGMS NIH HHS
ID : F31 GM126842
Pays : United States
Organisme : NCI NIH HHS
ID : P30 CA125123
Pays : United States
Organisme : NIA NIH HHS
ID : R01 AG071332
Pays : United States
Informations de copyright
Copyright © 2021 Elsevier Ltd. All rights reserved.
Déclaration de conflit d'intérêts
Declaration of interests The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.
Références
Proc Natl Acad Sci U S A. 2000 Aug 29;97(18):10132-7
pubmed: 10963675
J Am Soc Mass Spectrom. 2015 Apr;26(4):547-54
pubmed: 25481641
Nat Methods. 2018 Mar;15(3):191-193
pubmed: 29377013
Nat Struct Mol Biol. 2011 May;18(5):556-63
pubmed: 21478866
Nature. 2008 Nov 20;456(7220):350-6
pubmed: 19043829
Nat Immunol. 2012 Oct;13(10):991-9
pubmed: 22961052
Am J Respir Cell Mol Biol. 2001 Sep;25(3):335-40
pubmed: 11588011
Cell. 2012 Oct 12;151(2):289-303
pubmed: 23021777
J Am Soc Mass Spectrom. 2012 Sep;23(9):1512-21
pubmed: 22692830
Genes Dev. 1994 Mar 1;8(5):538-53
pubmed: 7926749
Cytokine Growth Factor Rev. 2016 Aug;30:1-17
pubmed: 27481185
Protein Sci. 1993 Apr;2(4):522-31
pubmed: 8390883
Mol Cell. 2015 Mar 19;57(6):1047-1058
pubmed: 25728767
Structure. 2017 Oct 3;25(10):1506-1518.e4
pubmed: 28890360
J Struct Biol. 2007 Jan;157(1):38-46
pubmed: 16859925
Nat Methods. 2015 Dec;12(12):1179-84
pubmed: 26414014
J Immunol. 2005 Sep 15;175(6):3800-9
pubmed: 16148126
Mol Cell Biol. 1993 Sep;13(9):5794-804
pubmed: 8395013
J Comput Chem. 2004 Oct;25(13):1605-12
pubmed: 15264254
Arthritis Rheumatol. 2014 Mar;66(3):579-88
pubmed: 24574218
Nat Struct Mol Biol. 2011 May;18(5):564-70
pubmed: 21478865
J Appl Crystallogr. 2017 Jun 26;50(Pt 4):1212-1225
pubmed: 28808438
Elife. 2019 Jun 07;8:
pubmed: 31172947
J Mol Biol. 2003 Apr 4;327(4):819-32
pubmed: 12654265
J Mol Biol. 1993 Dec 5;234(3):779-815
pubmed: 8254673
Nature. 2011 Apr 28;472(7344):491-4
pubmed: 21499262
Mol Cell Oncol. 2020 Jan 28;7(2):1701362
pubmed: 32158915
Bioinformatics. 2014 Sep 1;30(17):2524-6
pubmed: 24794931
Autoimmun Rev. 2016 Nov;15(11):1062-1070
pubmed: 27491564
Nat Med. 2016 May;22(5):488-96
pubmed: 27019329
EMBO Mol Med. 2011 Nov;3(11):637-51
pubmed: 21853531
Gene. 1996 Nov 28;181(1-2):199-206
pubmed: 8973331
Genome Biol. 2014;15(12):550
pubmed: 25516281
Nat Chem Biol. 2015 Feb;11(2):141-7
pubmed: 25558972
Genes Dev. 2017 Jun 15;31(12):1202-1211
pubmed: 28747429
Rapid Commun Mass Spectrom. 2008 Apr;22(7):1041-6
pubmed: 18327892
Cell Metab. 2015 Feb 03;21(2):286-298
pubmed: 25651181
Nat Immunol. 2017 Oct;18(10):1128-1138
pubmed: 28846085
Nat Commun. 2019 Oct 11;10(1):4621
pubmed: 31604910
Nat Commun. 2017 Oct 13;8(1):923
pubmed: 29030554
Science. 2000 Jun 30;288(5475):2369-73
pubmed: 10875923
Mol Cell. 2020 Sep 3;79(5):812-823.e4
pubmed: 32668201
Cell. 2006 Aug 25;126(4):789-99
pubmed: 16923397
JCI Insight. 2017 Mar 9;2(5):e91127
pubmed: 28289717
Mol Cell Proteomics. 2011 Jan;10(1):M110.002212
pubmed: 20736410
Cell. 2019 Apr 18;177(3):572-586.e22
pubmed: 30955884
Nucleic Acids Res. 2009 Jul;37(Web Server issue):W235-9
pubmed: 19417072
IUCrJ. 2015 Feb 26;2(Pt 2):207-17
pubmed: 25866658
Proc Natl Acad Sci U S A. 2018 Jan 16;115(3):E458-E467
pubmed: 29282318
Immunity. 2008 Jan;28(1):29-39
pubmed: 18164222
Mol Endocrinol. 2010 May;24(5):923-9
pubmed: 20203100
Nat Immunol. 2017 Mar 22;18(4):374-384
pubmed: 28323260
Anal Chem. 2020 Aug 18;92(16):11018-11028
pubmed: 32658454
Mol Cell Biol. 2006 Nov;26(21):7846-57
pubmed: 16923966
Nat Struct Biol. 1999 May;6(5):471-7
pubmed: 10331876
Genome Biol. 2008;9(9):R137
pubmed: 18798982
Mucosal Immunol. 2017 Jan;10(1):27-34
pubmed: 27706126
Science. 2015 Aug 7;349(6248):606-613
pubmed: 26160376
Nat Methods. 2012 Mar 04;9(4):357-9
pubmed: 22388286
Bioinformatics. 2015 Jul 15;31(14):2382-3
pubmed: 25765347
Nucleic Acids Res. 2020 Sep 25;48(17):9969-9985
pubmed: 32974652
Commun Biol. 2019 Nov 22;2:431
pubmed: 31799433
J Struct Biol. 2016 Jun;194(3):383-94
pubmed: 27016284
EMBO J. 2012 Jan 18;31(2):291-300
pubmed: 22179700
Nucleic Acids Res. 2019 Jan 8;47(D1):D442-D450
pubmed: 30395289
Nucleic Acids Res. 2020 Nov 4;48(19):11199-11213
pubmed: 32990725
Proc Natl Acad Sci U S A. 2003 Jun 10;100(12):7057-62
pubmed: 12773622
Mol Cell. 2010 May 28;38(4):576-89
pubmed: 20513432
Expert Opin Ther Pat. 2019 Sep;29(9):663-674
pubmed: 31403347
Sci Rep. 2015 Nov 09;5:16355
pubmed: 26549310
Structure. 2020 Jul 7;28(7):830-846.e9
pubmed: 32433991
J Immunol. 2019 Feb 1;202(3):760-769
pubmed: 30567733
J Appl Crystallogr. 2021 Feb 01;54(Pt 1):343-355
pubmed: 33833657
Immunity. 2012 Jan 27;36(1):23-31
pubmed: 22244845
Nat Methods. 2009 Aug;6(8):606-12
pubmed: 19620974
Steroids. 2002 Aug;67(9):799-813
pubmed: 12123792
Bioinformatics. 2010 Apr 1;26(7):966-8
pubmed: 20147306
J Chem Theory Comput. 2017 Jun 13;13(6):3031-3048
pubmed: 28430426
Cell Rep. 2016 Dec 20;17(12):3206-3218
pubmed: 28009290
Nat Commun. 2017 May 19;8:15473
pubmed: 28524877
Annu Rev Pharmacol Toxicol. 2020 Jan 6;60:371-390
pubmed: 31386594
Cell. 2020 Jan 9;180(1):79-91.e16
pubmed: 31866067
Nat Commun. 2017 Oct 11;8(1):868
pubmed: 29021580
Mol Cell. 1998 May;1(6):849-61
pubmed: 9660968
PLoS One. 2013 Sep 17;8(9):e73411
pubmed: 24069194
Nat Methods. 2017 Apr;14(4):417-419
pubmed: 28263959
Nat Immunol. 2011 Jun;12(6):560-7
pubmed: 21516112
J Mol Endocrinol. 2013 Nov 07;51(3):T1-T21
pubmed: 24103914
J Exp Med. 2015 May 4;212(5):607-17
pubmed: 25918343
Mol Cell Proteomics. 2015 Apr;14(4):1137-47
pubmed: 25648531
Endocrinology. 2015 Mar;156(3):869-81
pubmed: 25560829
Anal Chem. 2006 Feb 15;78(4):1005-14
pubmed: 16478090
Mol Cell Biol. 1992 Dec;12(12):5667-72
pubmed: 1448096
EMBO J. 2000 Mar 1;19(5):1045-54
pubmed: 10698945
Nature. 2010 Oct 21;467(7318):967-71
pubmed: 20962846
Cell Rep. 2018 May 22;23(8):2318-2329
pubmed: 29791844
Nature. 2013 Mar 21;495(7441):394-8
pubmed: 23485969
PLoS Genet. 2014 May 15;10(5):e1004331
pubmed: 24831725
Cell. 2006 Sep 22;126(6):1121-33
pubmed: 16990136